NP-MRD: Showing NP-Card for Nortopsentin D (NP0068934)

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Record Information

Version

2.0

Created at

2022-04-28 14:12:18 UTC

Updated at

2022-04-28 14:12:18 UTC

NP-MRD ID

NP0068934

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Nortopsentin D

Description

2-[2-(1H-indol-3-yl)-1H-imidazol-5-yl]-1H-indole belongs to the class of organic compounds known as indoles. Indoles are compounds containing an indole moiety, which consists of pyrrole ring fused to benzene to form 2,3-benzopyrrole. Nortopsentin D is found in Topsentia genitrix. Based on a literature review very few articles have been published on 2-[2-(1H-indol-3-yl)-1H-imidazol-5-yl]-1H-indole.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 37 41  0  0  0  0  0  0  0  0999 V2000
   -6.7176   -0.5252    0.2064 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.7870    0.6946   -0.4254 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.6424    1.3657   -0.7707 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4033    0.8238   -0.4878 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1336    1.2476   -0.7048 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2280    0.3728   -0.2501 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7699    0.4678   -0.2965 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0716    1.5208   -0.8405 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2491    1.2344   -0.6897 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.3798    0.0513   -0.0768 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6308   -0.5949    0.2602 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7903   -1.8204    0.8950 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0993   -2.0872    1.0357 N   0  0  0  0  0  0  0  0  0  0  0  0
    4.8289   -1.0699    0.5103 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.1909   -0.8631    0.4058 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.6470    0.3048   -0.1980 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7725    1.2376   -0.6826 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.4188    0.9907   -0.5574 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9170   -0.1503    0.0324 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1444   -0.3957    0.1524 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9621   -0.6738    0.2904 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3038   -0.3965    0.1443 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.4756   -1.0533    0.4821 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.6387   -1.0365    0.4693 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.7798    1.0902   -0.6322 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.7079    2.3120   -1.2609 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9139    2.1592   -1.1764 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5236    2.3877   -1.2902 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9812   -2.4577    1.2235 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5684   -2.9204    1.4680 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.8825   -1.6121    0.7950 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.7384    0.4213   -0.2562 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.1555    2.1411   -1.1497 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6847    1.7009   -0.9265 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0906   -1.2973    0.6188 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5520   -1.5666    0.7535 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.3783   -2.0036    0.9744 H   0  0  0  0  0  0  0  0  0  0  0  0
 13 12  1  0
 12 11  2  0
 11 10  1  0
 10  9  2  0
  9  8  1  0
  8  7  2  0
  7 20  1  0
  7  6  1  0
  6 21  2  0
 21 22  1  0
 22 23  2  0
 23  1  1  0
  1  2  2  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
 11 19  1  0
 19 18  2  0
 18 17  1  0
 17 16  2  0
 16 15  1  0
 15 14  2  0
 14 13  1  0
 20 10  1  0
  5  6  1  0
 14 19  1  0
  4 22  1  0
 13 30  1  0
 12 29  1  0
  8 28  1  0
 20 35  1  0
 21 36  1  0
 23 37  1  0
  1 24  1  0
  2 25  1  0
  3 26  1  0
  5 27  1  0
 18 34  1  0
 17 33  1  0
 16 32  1  0
 15 31  1  0
M  END


  Mrv1652304282216122D          

 23 27  0  0  0  0            999 V2000
   -5.8160   -1.1680    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.3311   -0.5005    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5106   -0.5868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1750   -1.3404    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6600   -2.0079    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.4804   -1.9216    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1750   -2.6753    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3904   -2.4204    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3904   -1.5954    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7230   -1.1104    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7230   -0.2854    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9384   -0.0305    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4534   -0.6979    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9384   -1.3654    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6284   -0.6979    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1435   -1.3654    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6411   -1.1104    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6411   -0.2854    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1435   -0.0305    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.3556    0.1271    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0701   -0.2854    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0701   -1.1104    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3556   -1.5229    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  2  3  1  0  0  0  0
  3  4  2  0  0  0  0
  4  5  1  0  0  0  0
  5  6  2  0  0  0  0
  1  6  1  0  0  0  0
  5  7  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  2  0  0  0  0
  4  9  1  0  0  0  0
  9 10  1  0  0  0  0
 10 11  2  0  0  0  0
 11 12  1  0  0  0  0
 12 13  2  0  0  0  0
 13 14  1  0  0  0  0
 10 14  1  0  0  0  0
 13 15  1  0  0  0  0
 15 16  2  0  0  0  0
 16 17  1  0  0  0  0
 17 18  1  0  0  0  0
 18 19  1  0  0  0  0
 15 19  1  0  0  0  0
 18 20  2  0  0  0  0
 20 21  1  0  0  0  0
 21 22  2  0  0  0  0
 22 23  1  0  0  0  0
 17 23  2  0  0  0  0
M  END
> <DATABASE_ID>
NP0068934

> <DATABASE_NAME>
NP-MRD

> <SMILES>
N1C=C(C2=NC=C(N2)C2=CC3=CC=CC=C3N2)C2=CC=CC=C12

> <INCHI_IDENTIFIER>
InChI=1S/C19H14N4/c1-3-7-15-12(5-1)9-17(22-15)18-11-21-19(23-18)14-10-20-16-8-4-2-6-13(14)16/h1-11,20,22H,(H,21,23)

> <INCHI_KEY>
FGGITUIVRBILMA-UHFFFAOYSA-N

> <FORMULA>
C19H14N4

> <MOLECULAR_WEIGHT>
298.349

> <EXACT_MASS>
298.121846467

> <JCHEM_ACCEPTOR_COUNT>
1

> <JCHEM_ATOM_COUNT>
37

> <JCHEM_AVERAGE_POLARIZABILITY>
33.79029250956334

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
3-[5-(1H-indol-2-yl)-1H-imidazol-2-yl]-1H-indole

> <ALOGPS_LOGP>
3.78

> <JCHEM_LOGP>
3.5642976376666664

> <ALOGPS_LOGS>
-4.55

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
5

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
14.935213885106982

> <JCHEM_PKA_STRONGEST_ACIDIC>
10.953890142298267

> <JCHEM_PKA_STRONGEST_BASIC>
5.479375499609437

> <JCHEM_POLAR_SURFACE_AREA>
60.26

> <JCHEM_REFRACTIVITY>
101.17860000000003

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
8.45e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
3-[4-(1H-indol-2-yl)-3H-imidazol-2-yl]-1H-indole

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 28-APR-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   28-APR-22         0                                  
HETATM    1  C   UNK     0     -10.857  -2.180   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -9.951  -0.934   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -8.420  -1.095   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -7.793  -2.502   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -8.699  -3.748   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0     -10.230  -3.587   0.000  0.00  0.00           C+0
HETATM    7  N   UNK     0      -7.793  -4.994   0.000  0.00  0.00           N+0
HETATM    8  C   UNK     0      -6.329  -4.518   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      -6.329  -2.978   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      -5.083  -2.073   0.000  0.00  0.00           C+0
HETATM   11  N   UNK     0      -5.083  -0.533   0.000  0.00  0.00           N+0
HETATM   12  C   UNK     0      -3.618  -0.057   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      -2.713  -1.303   0.000  0.00  0.00           C+0
HETATM   14  N   UNK     0      -3.618  -2.549   0.000  0.00  0.00           N+0
HETATM   15  C   UNK     0      -1.173  -1.303   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      -0.268  -2.549   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       1.197  -2.073   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       1.197  -0.533   0.000  0.00  0.00           C+0
HETATM   19  N   UNK     0      -0.268  -0.057   0.000  0.00  0.00           N+0
HETATM   20  C   UNK     0       2.530   0.237   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       3.864  -0.533   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       3.864  -2.073   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0       2.530  -2.843   0.000  0.00  0.00           C+0
CONECT    1    2    6                                                       
CONECT    2    1    3                                                       
CONECT    3    2    4                                                       
CONECT    4    3    5    9                                                  
CONECT    5    4    6    7                                                  
CONECT    6    5    1                                                       
CONECT    7    5    8                                                       
CONECT    8    7    9                                                       
CONECT    9    8    4   10                                                  
CONECT   10    9   11   14                                                  
CONECT   11   10   12                                                       
CONECT   12   11   13                                                       
CONECT   13   12   14   15                                                  
CONECT   14   13   10                                                       
CONECT   15   13   16   19                                                  
CONECT   16   15   17                                                       
CONECT   17   16   18   23                                                  
CONECT   18   17   19   20                                                  
CONECT   19   18   15                                                       
CONECT   20   18   21                                                       
CONECT   21   20   22                                                       
CONECT   22   21   23                                                       
CONECT   23   22   17                                                       
MASTER        0    0    0    0    0    0    0    0   23    0   54    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₉H₁₄N₄

Average Mass

298.3490 Da

Monoisotopic Mass

298.12185 Da

IUPAC Name

3-[5-(1H-indol-2-yl)-1H-imidazol-2-yl]-1H-indole

Traditional Name

3-[4-(1H-indol-2-yl)-3H-imidazol-2-yl]-1H-indole

CAS Registry Number

Not Available

SMILES

N1C=C(C2=NC=C(N2)C2=CC3=CC=CC=C3N2)C2=CC=CC=C12

InChI Identifier

InChI=1S/C19H14N4/c1-3-7-15-12(5-1)9-17(22-15)18-11-21-19(23-18)14-10-20-16-8-4-2-6-13(14)16/h1-11,20,22H,(H,21,23)

InChI Key

FGGITUIVRBILMA-UHFFFAOYSA-N

Experimental Spectra

Not Available

Predicted Spectra

Spectrum Type	Description	Depositor ID	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹³C NMR Spectrum (1D, 25 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum

Chemical Shift Submissions

Not Available

Species

Species of Origin

Species Name	Source	Reference
Topsentia genitrix	Animalia	KNApSAcK

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as indoles. Indoles are compounds containing an indole moiety, which consists of pyrrole ring fused to benzene to form 2,3-benzopyrrole.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Indoles and derivatives

Sub Class

Indoles

Direct Parent

Indoles

Alternative Parents

Substituents

Indole
Benzenoid
Substituted pyrrole
Heteroaromatic compound
Pyrrole
Imidazole
Azole
Azacycle
Organic nitrogen compound
Organopnictogen compound
Hydrocarbon derivative
Organonitrogen compound
Aromatic heteropolycyclic compound

Molecular Framework

Aromatic heteropolycyclic compounds

External Descriptors

Not Available

Physical Properties

State

Not Available

Experimental Properties

Property	Value	Reference
Melting Point	Not Available	Not Available
Boiling Point	Not Available	Not Available
Water Solubility	Not Available	Not Available
LogP	Not Available	Not Available

Predicted Properties

Property	Value	Source
logP	3.78	ALOGPS
logP	3.56	ChemAxon
logS	-4.6	ALOGPS
pKa (Strongest Acidic)	10.95	ChemAxon
pKa (Strongest Basic)	5.48	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	1	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	60.26 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	101.18 m³·mol⁻¹	ChemAxon
Polarizability	33.79 Å³	ChemAxon
Number of Rings	5	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

C00027036

Chemspider ID

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

163068245

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Not Available

Showing NP-Card for Nortopsentin D (NP0068934)

MOL for NP0068934 (Nortopsentin D)

3D MOL for NP0068934 (Nortopsentin D)

3D SDF for NP0068934 (Nortopsentin D)

3D-SDF for NP0068934 (Nortopsentin D)

PDB for NP0068934 (Nortopsentin D)

3D PDB for NP0068934 (Nortopsentin D)

SMILES for NP0068934 (Nortopsentin D)

INCHI for NP0068934 (Nortopsentin D)

Structure for NP0068934 (Nortopsentin D)

3D Structure for NP0068934 (Nortopsentin D)